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Structure of iC3b1

Analyse Structure of iC3b1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6YO6
Type: protein
Length: 1,665 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 6
Source: Homo sapiens; Lama glama
Molecule: iC3b1 alpha chain; iC3b1 beta chain; hC3Nb1
Pockets: 20 · best druggability 0.78

Structure

x-ray diffraction · resolution 6 · 3 distinct chains · 17% helix, 40% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	iC3b1 alpha chain	protein	638	8% helix, 50% strand	—
B	iC3b1 beta chain	protein	903	25% helix, 31% strand	—
C	hC3Nb1	protein	124	7% helix, 48% strand	—

Pockets

20 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1035	0.78	0.80	83	empty
2	73	0.72	0.96	22	empty
3	348	0.67	0.81	42	empty
4	567	0.67	0.77	43	empty
5	129	0.62	0.86	24	empty

Interfaces

3 interfaces between chains.

A–B · 5400 Å² buried · 74 hydrogen bonds · protein-protein
B–C · 734 Å² buried · 15 hydrogen bonds · protein-protein
A–C · 19 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 11 disulfide (disulfide).

Compared structures

6YO6 · Structure of IC3B1 · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 6YO6 · PDBe 6YO6

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